SMTL ID : 4fw6.4 (3 other biounits)

Crystal Structure of the LpxC in complex with N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]-4-(PHENYLETHYNYL)BENZAMIDE inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.81, H.240, D.244 Ligands: L59.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.81, A:H.240, A:D.244, A:D.244

1 x L59: N-[(2S,3R)-3-hydroxy-1-(hydroxyamino)-1-oxobutan-2-yl]-4-(phenylethynyl)benzamide(Non-covalent)

L59.2: 22 residues within 4Å: Chain A: L.21, H.22, M.65, S.66, E.80, H.81, T.193, F.194, I.200, L.203, R.204, A.209, G.212, S.213, V.214, A.217, V.219, H.240, K.241, D.244, H.267 Ligands: ZN.1 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:L.21, A:T.193, A:F.194, A:I.200, A:I.200, A:L.203, A:A.209, A:A.217, A:V.219 Hydrogen bonds: A:M.65, A:E.80, A:T.193, A:T.193, A:K.241, A:D.244 Water bridges: A:K.241, A:H.267, A:H.267

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: A.87, F.155, I.246, L.249, Y.250, N.254, S.255, L.256 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.246, A:N.254, A:L.256 GOL.4: 7 residues within 4Å: Chain A: D.107, G.111, P.112, V.114, F.115, R.190, R.232 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.107, A:F.115, A:R.190, A:R.232

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 4 residues within 4Å: Chain A: P.33, A.34, P.35, Q.125 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.34 ACT.6: 5 residues within 4Å: Chain A: K.32, S.43, E.52, Y.95, E.97 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.43 Salt bridges: A:K.32

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 1 residues within 4Å: Chain A: D.73 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, Y.N. et al., Crystal Structure of the LpxC. to be published

Release Date

2013-05-15

Peptides

UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase

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